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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Interaction pattern similarity measured by Grim
You can zoom onto the graph by using the mouse to make a selection

Binding Modes are compared using Grim.
For more information, please see the following publication: Desaphy J. et al. Encoding Protein-Ligand Interaction Patterns in Fingerprints and Graphs J. Chem. Inf. Model., 2013, 53 (3), pp 623-637
Binding modes are considered as similar when the similarity value is greater than 0.65


Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
4hr2 ADP Nucleoside diphosphate kinase

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
4hr2 ADPNucleoside diphosphate kinase / 1.017
4uof DATNucleoside diphosphate kinase / 0.722
4fkx CDPNucleoside diphosphate kinase / 0.716
3bbf GDPNucleoside diphosphate kinase B 2.7.4.6 0.691
2dxe GDPNucleoside diphosphate kinase 2.7.4.6 0.685
2cgp CMPcAMP-activated global transcriptional regulator CRP / 0.684
1zs6 ADPNucleoside diphosphate kinase 3 2.7.4.6 0.683
1ndc TYDNucleoside diphosphate kinase, cytosolic 2.7.4.6 0.682
2dxf GNPNucleoside diphosphate kinase 2.7.4.6 0.676
4hzf CMPcAMP-activated global transcriptional regulator CRP / 0.675
1vp6 CMPCyclic nucleotide-gated potassium channel mll3241 / 0.674
4hbn CMPPotassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 / 0.674
4i02 CMPcAMP-activated global transcriptional regulator CRP / 0.668
3n4m CMPcAMP-activated global transcriptional regulator CRP / 0.665
1nhk CMPNucleoside diphosphate kinase 2.7.4.6 0.662
4ft8 CMPcAMP-activated global transcriptional regulator CRP / 0.661
4i0b CMPcAMP-activated global transcriptional regulator CRP / 0.660
1g6n CMPcAMP-activated global transcriptional regulator CRP / 0.659
4pb1 RBVNucleoside permease / 0.658
1rgs CMPcAMP-dependent protein kinase type I-alpha regulatory subunit / 0.657
4ku7 PCGcGMP-dependent protein kinase 1 2.7.11.12 0.657
1zrd CMPcAMP-activated global transcriptional regulator CRP / 0.656
2hve ADPNucleoside diphosphate kinase A 2.7.4.6 0.655
4uoh ADPNucleoside diphosphate kinase / 0.653
2ydo ADNAdenosine receptor A2a / 0.652
3cl1 PCGCyclic nucleotide-gated potassium channel mll3241 / 0.652
3ryp CMPcAMP-activated global transcriptional regulator CRP / 0.651
1cgp CMPcAMP-activated global transcriptional regulator CRP / 0.650